[INFO] fetching crate blobtk 0.7.9... [INFO] checking blobtk-0.7.9 against master#2ca7bcd03b87b52f7055a59b817443b0ac4a530d for pr-150322 [INFO] extracting crate blobtk 0.7.9 into /workspace/builds/worker-7-tc1/source [INFO] started tweaking crates.io crate blobtk 0.7.9 [INFO] finished tweaking crates.io crate blobtk 0.7.9 [INFO] tweaked toml for crates.io crate blobtk 0.7.9 written to /workspace/builds/worker-7-tc1/source/Cargo.toml [INFO] validating manifest of crates.io crate blobtk 0.7.9 on toolchain 2ca7bcd03b87b52f7055a59b817443b0ac4a530d [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2ca7bcd03b87b52f7055a59b817443b0ac4a530d" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate crates.io crate blobtk 0.7.9 already has a lockfile, it will not be regenerated [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2ca7bcd03b87b52f7055a59b817443b0ac4a530d" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded imagesize v0.11.0 [INFO] [stderr] Downloaded usvg v0.31.0 [INFO] [stderr] Downloaded fontdb v0.13.1 [INFO] [stderr] Downloaded rosvgtree v0.2.0 [INFO] [stderr] Downloaded roxmltree v0.18.1 [INFO] [stderr] Downloaded usvg-text-layout v0.31.0 [INFO] [stderr] Downloaded usvg-tree v0.31.0 [INFO] [stderr] Downloaded usvg-parser v0.31.0 [INFO] [stderr] Downloaded trie-rs v0.1.1 [INFO] [stderr] Downloaded struct_iterable_internal v0.1.1 [INFO] [stderr] Downloaded colorous v1.0.16 [INFO] [stderr] Downloaded coord_transforms v1.4.0 [INFO] [stderr] Downloaded ord_subset v3.1.2 [INFO] [stderr] Downloaded nucleo-matcher v0.3.1 [INFO] [stderr] Downloaded blart v0.3.0 [INFO] [stderr] Downloaded cpc v1.9.3 [INFO] [stderr] Downloaded numfmt v1.2.0 [INFO] [stderr] Downloaded fid-rs v0.1.1 [INFO] [stderr] Downloaded buffer-redux v1.1.0 [INFO] [stderr] Downloaded svgfilters v0.4.0 [INFO] [stderr] Downloaded cmake v0.1.56 [INFO] [stderr] Downloaded struct_iterable_derive v0.1.0 [INFO] [stderr] Downloaded svg v0.13.1 [INFO] [stderr] Downloaded struct_iterable v0.1.1 [INFO] [stderr] Downloaded titlecase v2.2.1 [INFO] [stderr] Downloaded louds-rs v0.4.0 [INFO] [stderr] Downloaded decimal v2.1.0 [INFO] [stderr] Downloaded curl-sys v0.4.84+curl-8.17.0 [INFO] [stderr] Downloaded resvg v0.31.1 [INFO] [stderr] Downloaded rust-htslib v0.40.2 [INFO] [stderr] Downloaded nalgebra v0.31.4 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:845e597a41426bbf2703be69acdb67d10b6de511142d05cba7bbe119c898b2c7" "/opt/rustwide/cargo-home/bin/cargo" "+2ca7bcd03b87b52f7055a59b817443b0ac4a530d" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 39999ebefac15b56fe27b37231270d9bda5916e2aa426f9277263ccbfc53a9f3 [INFO] running `Command { std: "docker" "start" "-a" "39999ebefac15b56fe27b37231270d9bda5916e2aa426f9277263ccbfc53a9f3", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "39999ebefac15b56fe27b37231270d9bda5916e2aa426f9277263ccbfc53a9f3", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "39999ebefac15b56fe27b37231270d9bda5916e2aa426f9277263ccbfc53a9f3", kill_on_drop: false }` [INFO] [stdout] 39999ebefac15b56fe27b37231270d9bda5916e2aa426f9277263ccbfc53a9f3 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:845e597a41426bbf2703be69acdb67d10b6de511142d05cba7bbe119c898b2c7" "/opt/rustwide/cargo-home/bin/cargo" "+2ca7bcd03b87b52f7055a59b817443b0ac4a530d" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] adeb61c1413db6ed83b6ec185ad3672820cf79e235d0130a4dbc14aca773e623 [INFO] running `Command { std: "docker" "start" "-a" "adeb61c1413db6ed83b6ec185ad3672820cf79e235d0130a4dbc14aca773e623", kill_on_drop: false }` [INFO] [stderr] Checking bytemuck v1.24.0 [INFO] [stderr] Checking num-traits v0.2.19 [INFO] [stderr] Checking parking_lot_core v0.9.12 [INFO] [stderr] Checking signal-hook-registry v1.4.7 [INFO] [stderr] Compiling cc v1.2.49 [INFO] [stderr] Compiling tokio-macros v2.6.0 [INFO] [stderr] Checking serde v1.0.228 [INFO] [stderr] Compiling equator-macro v0.4.2 [INFO] [stderr] Checking tracing v0.1.43 [INFO] [stderr] Checking kurbo v0.9.5 [INFO] [stderr] Compiling slotmap v1.1.1 [INFO] [stderr] Checking futures-util v0.3.31 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling unicode-general-category v0.6.0 [INFO] [stderr] Compiling serde_core v1.0.228 [INFO] [stderr] Checking http v0.2.12 [INFO] [stderr] Checking icu_normalizer v2.1.1 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Checking parking_lot v0.12.5 [INFO] [stderr] Checking ttf-parser v0.18.1 [INFO] [stderr] Checking weezl v0.1.12 [INFO] [stderr] Compiling rustls v0.21.12 [INFO] [stderr] Checking rctree v0.5.0 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Checking xmlparser v0.13.6 [INFO] [stderr] Checking equator v0.4.2 [INFO] [stderr] Compiling serde_json v1.0.145 [INFO] [stderr] Compiling built v0.7.7 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Compiling darling_core v0.20.11 [INFO] [stderr] Checking idna_adapter v1.2.1 [INFO] [stderr] Compiling rav1e v0.7.1 [INFO] [stderr] Checking roxmltree v0.18.1 [INFO] [stderr] Checking svgtypes v0.11.0 [INFO] [stderr] Checking aligned-vec v0.6.4 [INFO] [stderr] Checking safe_arch v0.7.4 [INFO] [stderr] Checking rgb v0.8.52 [INFO] [stderr] Checking tokio v1.48.0 [INFO] [stderr] Checking float-cmp v0.9.0 [INFO] [stderr] Checking num-integer v0.1.46 [INFO] [stderr] Checking v_frame v0.3.9 [INFO] [stderr] Checking strict-num v0.1.1 [INFO] [stderr] Compiling profiling-procmacros v1.0.17 [INFO] [stderr] Checking memmap2 v0.5.10 [INFO] [stderr] Compiling cmake v0.1.56 [INFO] [stderr] Compiling openssl-src v300.5.4+3.5.4 [INFO] [stderr] Checking num-bigint v0.4.6 [INFO] [stderr] Checking thiserror v1.0.69 [INFO] [stderr] Checking simplecss v0.2.2 [INFO] [stderr] Compiling matrixmultiply v0.3.10 [INFO] [stderr] Checking unicode-ccc v0.1.2 [INFO] [stderr] Checking unicode-bidi-mirroring v0.1.0 [INFO] [stderr] Checking unicode-script v0.5.8 [INFO] [stderr] Checking idna v1.1.0 [INFO] [stderr] Checking usvg-tree v0.31.0 [INFO] [stderr] Checking wide v0.7.33 [INFO] [stderr] Checking profiling v1.0.17 [INFO] [stderr] Checking png v0.17.16 [INFO] [stderr] Checking rosvgtree v0.2.0 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Checking num-complex v0.4.6 [INFO] [stderr] Checking http-body v0.4.6 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking fontdb v0.13.1 [INFO] [stderr] Checking rustybuzz v0.7.0 [INFO] [stderr] Checking maybe-rayon v0.1.1 [INFO] [stderr] Compiling num-derive v0.4.2 [INFO] [stderr] Compiling arg_enum_proc_macro v0.3.4 [INFO] [stderr] Checking itertools v0.12.1 [INFO] [stderr] Compiling simd_helpers v0.1.0 [INFO] [stderr] Checking socket2 v0.5.10 [INFO] [stderr] Checking unicode-vo v0.1.0 [INFO] [stderr] Compiling ring v0.17.14 [INFO] [stderr] Compiling bzip2-sys v0.1.13+1.0.8 [INFO] [stderr] Compiling lzma-sys v0.1.20 [INFO] [stderr] Compiling libz-sys v1.1.23 [INFO] [stderr] Compiling openssl-sys v0.9.111 [INFO] [stderr] Checking num-rational v0.4.2 [INFO] [stderr] Compiling curl-sys v0.4.84+curl-8.17.0 [INFO] [stderr] Compiling hts-sys v2.2.0 [INFO] [stderr] Compiling decimal v2.1.0 [INFO] [stderr] Checking data-url v0.2.0 [INFO] [stderr] Checking av1-grain v0.2.5 [INFO] [stderr] Checking jpeg-decoder v0.3.2 [INFO] [stderr] Checking bitstream-io v2.6.0 [INFO] [stderr] Checking imgref v1.12.0 [INFO] [stderr] Checking sync_wrapper v1.0.2 [INFO] [stderr] Compiling noop_proc_macro v0.3.0 [INFO] [stderr] Checking imagesize v0.11.0 [INFO] [stderr] Checking loop9 v0.1.5 [INFO] [stderr] Checking tiny-skia-path v0.8.4 [INFO] [stderr] Checking simba v0.7.3 [INFO] [stderr] Checking usvg-parser v0.31.0 [INFO] [stderr] Compiling erased-serde v0.3.31 [INFO] [stderr] Checking usvg-text-layout v0.31.0 [INFO] [stderr] Checking url v2.5.7 [INFO] [stderr] Compiling strum_macros v0.26.4 [INFO] [stderr] Checking ordered-float v2.10.1 [INFO] [stderr] Checking serde_urlencoded v0.7.1 [INFO] [stderr] Compiling darling_macro v0.20.11 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Checking fid-rs v0.1.1 [INFO] [stderr] Compiling derive-new v0.6.0 [INFO] [stderr] Checking zune-inflate v0.2.54 [INFO] [stderr] Checking avif-serialize v0.8.6 [INFO] [stderr] Compiling schemars v0.8.22 [INFO] [stderr] Checking ord_subset v3.1.2 [INFO] [stderr] Checking xmlwriter v0.1.0 [INFO] [stderr] Compiling darling v0.20.11 [INFO] [stderr] Checking pico-args v0.5.0 [INFO] [stderr] Compiling struct_iterable_internal v0.1.1 [INFO] [stderr] Compiling rust_decimal v1.39.0 [INFO] [stderr] Checking zune-core v0.4.12 [INFO] [stderr] Checking lebe v0.5.3 [INFO] [stderr] Checking bit_field v0.10.3 [INFO] [stderr] Checking usvg v0.31.0 [INFO] [stderr] Compiling struct_iterable_derive v0.1.0 [INFO] [stderr] Checking chrono v0.4.42 [INFO] [stderr] Checking exr v1.74.0 [INFO] [stderr] Checking image-webp v0.2.4 [INFO] [stderr] Compiling serde_with_macros v2.3.3 [INFO] [stderr] Checking console v0.15.11 [INFO] [stderr] Checking zune-jpeg v0.4.21 [INFO] [stderr] Checking louds-rs v0.4.0 [INFO] [stderr] Compiling schemars_derive v0.8.22 [INFO] [stderr] Checking tokio-util v0.7.17 [INFO] [stderr] Checking hyper v1.8.1 [INFO] [stderr] Checking tower v0.5.2 [INFO] [stderr] Checking serde-value v0.7.0 [INFO] [stderr] Checking h2 v0.3.27 [INFO] [stderr] Checking axum-core v0.5.5 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Checking tiny-skia v0.8.4 [INFO] [stderr] Checking hyper-util v0.1.19 [INFO] [stderr] Checking bzip2 v0.4.4 [INFO] [stderr] Checking tiff v0.9.1 [INFO] [stderr] Checking gif v0.12.0 [INFO] [stderr] Checking bio-types v1.0.4 [INFO] [stderr] Checking gif v0.13.3 [INFO] [stderr] Checking svgfilters v0.4.0 [INFO] [stderr] Compiling clap_derive v4.5.49 [INFO] [stderr] Checking qoi v0.4.1 [INFO] [stderr] Checking env_filter v0.1.4 [INFO] [stderr] Checking serde_path_to_error v0.1.20 [INFO] [stderr] Checking buffer-redux v1.1.0 [INFO] [stderr] Checking csv-core v0.1.13 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking jiff v0.2.16 [INFO] [stderr] Checking linear-map v1.2.0 [INFO] [stderr] Checking bytecount v0.6.9 [INFO] [stderr] Checking ieee754 v0.2.6 [INFO] [stderr] Checking joinery v2.1.0 [INFO] [stderr] Checking sptr v0.3.2 [INFO] [stderr] Checking indicatif v0.17.11 [INFO] [stderr] Checking titlecase v2.2.1 [INFO] [stderr] Checking blart v0.3.0 [INFO] [stderr] Checking nalgebra v0.31.4 [INFO] [stderr] Checking struct_iterable v0.1.1 [INFO] [stderr] Checking nom v7.1.3 [INFO] [stderr] Checking numfmt v1.2.0 [INFO] [stderr] Checking resvg v0.31.1 [INFO] [stderr] Checking ravif v0.11.20 [INFO] [stderr] Checking csv v1.4.0 [INFO] [stderr] Checking image v0.25.6 [INFO] [stderr] Checking axum v0.8.7 [INFO] [stderr] Checking serde_yaml v0.9.34+deprecated [INFO] [stderr] Checking serde_with v2.3.3 [INFO] [stderr] Checking sct v0.7.1 [INFO] [stderr] Checking rustls-webpki v0.101.7 [INFO] [stderr] Checking serde-aux v4.7.0 [INFO] [stderr] Checking cpc v1.9.3 [INFO] [stderr] Checking trie-rs v0.1.1 [INFO] [stderr] Checking unicode-normalization v0.1.25 [INFO] [stderr] Checking hyper v0.14.32 [INFO] [stderr] Checking nucleo-matcher v0.3.1 [INFO] [stderr] Checking clap v4.5.53 [INFO] [stderr] Checking clap-num v1.2.0 [INFO] [stderr] Checking colorous v1.0.16 [INFO] [stderr] Checking svg v0.13.1 [INFO] [stderr] Checking xz2 v0.1.7 [INFO] [stderr] Checking needletail v0.5.1 [INFO] [stderr] Checking tokio-rustls v0.24.1 [INFO] [stderr] Checking env_logger v0.11.8 [INFO] [stderr] Checking hyper-rustls v0.24.2 [INFO] [stderr] Checking reqwest v0.11.27 [INFO] [stderr] Checking coord_transforms v1.4.0 [INFO] [stderr] Checking rust-htslib v0.40.2 [INFO] [stderr] Checking blobtk v0.7.9 (/opt/rustwide/workdir) [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1420:44 [INFO] [stdout] | [INFO] [stdout] 1420 | fn parse_busco_txt_summary(mut reader: R) -> Result { [INFO] [stdout] | ----^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1436:13 [INFO] [stdout] | [INFO] [stdout] 1436 | let mut domain = String::new(); [INFO] [stdout] | ----^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1437:13 [INFO] [stdout] | [INFO] [stdout] 1437 | let mut number_of_scaffolds = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1438:13 [INFO] [stdout] | [INFO] [stdout] 1438 | let mut number_of_contigs = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1439:13 [INFO] [stdout] | [INFO] [stdout] 1439 | let mut total_length = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1440:13 [INFO] [stdout] | [INFO] [stdout] 1440 | let mut percent_gaps = 0.0; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1441:13 [INFO] [stdout] | [INFO] [stdout] 1441 | let mut scaffold_n50 = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1442:13 [INFO] [stdout] | [INFO] [stdout] 1442 | let mut contigs_n50 = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `summary_line` is assigned to, but never used [INFO] [stdout] --> src/index.rs:1429:13 [INFO] [stdout] | [INFO] [stdout] 1429 | let mut summary_line = String::new(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_summary_line` instead [INFO] [stdout] = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `domain` [INFO] [stdout] --> src/index.rs:1436:13 [INFO] [stdout] | [INFO] [stdout] 1436 | let mut domain = String::new(); [INFO] [stdout] | ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_domain` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `summary_line` is never read [INFO] [stdout] --> src/index.rs:1467:17 [INFO] [stdout] | [INFO] [stdout] 1467 | summary_line = line.trim().to_string(); [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `rank_set` [INFO] [stdout] --> src/parse/lookup.rs:30:9 [INFO] [stdout] | [INFO] [stdout] 30 | let rank_set: HashSet<&str> = HashSet::from_iter(RANKS.iter().cloned()); [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rank_set` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `higher_rank_set` [INFO] [stdout] --> src/parse/lookup.rs:31:9 [INFO] [stdout] | [INFO] [stdout] 31 | let higher_rank_set: HashSet<&str> = HashSet::from_iter(HIGHER_RANKS.iter().cloned()); [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_higher_rank_set` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1420:44 [INFO] [stdout] | [INFO] [stdout] 1420 | fn parse_busco_txt_summary(mut reader: R) -> Result { [INFO] [stdout] | ----^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1436:13 [INFO] [stdout] | [INFO] [stdout] 1436 | let mut domain = String::new(); [INFO] [stdout] | ----^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1437:13 [INFO] [stdout] | [INFO] [stdout] 1437 | let mut number_of_scaffolds = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1438:13 [INFO] [stdout] | [INFO] [stdout] 1438 | let mut number_of_contigs = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1439:13 [INFO] [stdout] | [INFO] [stdout] 1439 | let mut total_length = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1440:13 [INFO] [stdout] | [INFO] [stdout] 1440 | let mut percent_gaps = 0.0; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1441:13 [INFO] [stdout] | [INFO] [stdout] 1441 | let mut scaffold_n50 = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/index.rs:1442:13 [INFO] [stdout] | [INFO] [stdout] 1442 | let mut contigs_n50 = 0usize; [INFO] [stdout] | ----^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable `summary_line` is assigned to, but never used [INFO] [stdout] --> src/index.rs:1429:13 [INFO] [stdout] | [INFO] [stdout] 1429 | let mut summary_line = String::new(); [INFO] [stdout] | ^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: consider using `_summary_line` instead [INFO] [stdout] = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `domain` [INFO] [stdout] --> src/index.rs:1436:13 [INFO] [stdout] | [INFO] [stdout] 1436 | let mut domain = String::new(); [INFO] [stdout] | ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_domain` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `summary_line` is never read [INFO] [stdout] --> src/index.rs:1467:17 [INFO] [stdout] | [INFO] [stdout] 1467 | summary_line = line.trim().to_string(); [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `rank_set` [INFO] [stdout] --> src/parse/lookup.rs:30:9 [INFO] [stdout] | [INFO] [stdout] 30 | let rank_set: HashSet<&str> = HashSet::from_iter(RANKS.iter().cloned()); [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rank_set` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `higher_rank_set` [INFO] [stdout] --> src/parse/lookup.rs:31:9 [INFO] [stdout] | [INFO] [stdout] 31 | let higher_rank_set: HashSet<&str> = HashSet::from_iter(HIGHER_RANKS.iter().cloned()); [INFO] [stdout] | ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_higher_rank_set` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `seq_name`, `bins`, `bin_count`, `last_bin`, `seq_length`, and `step` are never read [INFO] [stdout] --> src/bam.rs:131:5 [INFO] [stdout] | [INFO] [stdout] 130 | pub struct BinnedCov { [INFO] [stdout] | --------- fields in this struct [INFO] [stdout] 131 | seq_name: String, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 132 | bins: Vec, [INFO] [stdout] | ^^^^ [INFO] [stdout] 133 | bin_count: usize, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 134 | last_bin: usize, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 135 | seq_length: usize, [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] 136 | step: usize, [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BinnedCov` has derived impls for the traits `Debug` and `Clone`, but these are intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple fields are never read [INFO] [stdout] --> src/index.rs:876:5 [INFO] [stdout] | [INFO] [stdout] 865 | struct BuscoResults { [INFO] [stdout] | ------------ fields in this struct [INFO] [stdout] ... [INFO] [stdout] 876 | n_markers: usize, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 877 | domain: String, [INFO] [stdout] | ^^^^^^ [INFO] [stdout] 878 | #[serde(alias = "Number of scaffolds", deserialize_with = "string_or_usize")] [INFO] [stdout] 879 | number_of_scaffolds: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] 880 | #[serde(alias = "Number of contigs", deserialize_with = "string_or_usize")] [INFO] [stdout] 881 | number_of_contigs: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] 882 | #[serde(alias = "Total length", deserialize_with = "string_or_usize")] [INFO] [stdout] 883 | total_length: usize, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 884 | #[serde(alias = "Percent gaps", deserialize_with = "percent_string_or_f64")] [INFO] [stdout] 885 | percent_gaps: f64, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 886 | #[serde(alias = "Scaffold N50", deserialize_with = "string_or_usize")] [INFO] [stdout] 887 | scaffold_n50: usize, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 888 | #[serde(alias = "Contigs N50", deserialize_with = "string_or_usize")] [INFO] [stdout] 889 | contigs_n50: usize, [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoResults` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `name`, `creation_date`, and `number_of_species` are never read [INFO] [stdout] --> src/index.rs:932:5 [INFO] [stdout] | [INFO] [stdout] 931 | struct BuscoLineageDataset { [INFO] [stdout] | ------------------- fields in this struct [INFO] [stdout] 932 | name: String, [INFO] [stdout] | ^^^^ [INFO] [stdout] 933 | creation_date: String, [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 937 | number_of_species: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoLineageDataset` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `hmmsearch`, `bbtools`, `metaeuk`, and `busco` are never read [INFO] [stdout] --> src/index.rs:942:5 [INFO] [stdout] | [INFO] [stdout] 940 | struct BuscoVersions { [INFO] [stdout] | ------------- fields in this struct [INFO] [stdout] 941 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 942 | hmmsearch: String, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 943 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 944 | bbtools: String, [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] 945 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 946 | metaeuk: String, [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] 947 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 948 | busco: String, [INFO] [stdout] | ^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoVersions` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `versions` is never read [INFO] [stdout] --> src/index.rs:967:5 [INFO] [stdout] | [INFO] [stdout] 964 | struct BuscoSummary { [INFO] [stdout] | ------------ field in this struct [INFO] [stdout] ... [INFO] [stdout] 967 | versions: BuscoVersions, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoSummary` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `seq_name`, `bins`, `bin_count`, `last_bin`, `seq_length`, and `step` are never read [INFO] [stdout] --> src/bam.rs:131:5 [INFO] [stdout] | [INFO] [stdout] 130 | pub struct BinnedCov { [INFO] [stdout] | --------- fields in this struct [INFO] [stdout] 131 | seq_name: String, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 132 | bins: Vec, [INFO] [stdout] | ^^^^ [INFO] [stdout] 133 | bin_count: usize, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 134 | last_bin: usize, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 135 | seq_length: usize, [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] 136 | step: usize, [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BinnedCov` has derived impls for the traits `Debug` and `Clone`, but these are intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: multiple fields are never read [INFO] [stdout] --> src/index.rs:876:5 [INFO] [stdout] | [INFO] [stdout] 865 | struct BuscoResults { [INFO] [stdout] | ------------ fields in this struct [INFO] [stdout] ... [INFO] [stdout] 876 | n_markers: usize, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 877 | domain: String, [INFO] [stdout] | ^^^^^^ [INFO] [stdout] 878 | #[serde(alias = "Number of scaffolds", deserialize_with = "string_or_usize")] [INFO] [stdout] 879 | number_of_scaffolds: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] 880 | #[serde(alias = "Number of contigs", deserialize_with = "string_or_usize")] [INFO] [stdout] 881 | number_of_contigs: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] 882 | #[serde(alias = "Total length", deserialize_with = "string_or_usize")] [INFO] [stdout] 883 | total_length: usize, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 884 | #[serde(alias = "Percent gaps", deserialize_with = "percent_string_or_f64")] [INFO] [stdout] 885 | percent_gaps: f64, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 886 | #[serde(alias = "Scaffold N50", deserialize_with = "string_or_usize")] [INFO] [stdout] 887 | scaffold_n50: usize, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] 888 | #[serde(alias = "Contigs N50", deserialize_with = "string_or_usize")] [INFO] [stdout] 889 | contigs_n50: usize, [INFO] [stdout] | ^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoResults` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `name`, `creation_date`, and `number_of_species` are never read [INFO] [stdout] --> src/index.rs:932:5 [INFO] [stdout] | [INFO] [stdout] 931 | struct BuscoLineageDataset { [INFO] [stdout] | ------------------- fields in this struct [INFO] [stdout] 932 | name: String, [INFO] [stdout] | ^^^^ [INFO] [stdout] 933 | creation_date: String, [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 937 | number_of_species: usize, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoLineageDataset` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `hmmsearch`, `bbtools`, `metaeuk`, and `busco` are never read [INFO] [stdout] --> src/index.rs:942:5 [INFO] [stdout] | [INFO] [stdout] 940 | struct BuscoVersions { [INFO] [stdout] | ------------- fields in this struct [INFO] [stdout] 941 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 942 | hmmsearch: String, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] 943 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 944 | bbtools: String, [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] 945 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 946 | metaeuk: String, [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] 947 | #[serde(deserialize_with = "numeric_or_string_to_string")] [INFO] [stdout] 948 | busco: String, [INFO] [stdout] | ^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoVersions` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `versions` is never read [INFO] [stdout] --> src/index.rs:967:5 [INFO] [stdout] | [INFO] [stdout] 964 | struct BuscoSummary { [INFO] [stdout] | ------------ field in this struct [INFO] [stdout] ... [INFO] [stdout] 967 | versions: BuscoVersions, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `BuscoSummary` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 2m 57s [INFO] running `Command { std: "docker" "inspect" "adeb61c1413db6ed83b6ec185ad3672820cf79e235d0130a4dbc14aca773e623", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "adeb61c1413db6ed83b6ec185ad3672820cf79e235d0130a4dbc14aca773e623", kill_on_drop: false }` [INFO] [stdout] adeb61c1413db6ed83b6ec185ad3672820cf79e235d0130a4dbc14aca773e623